miRNA: 3'- -ACUGGCuaaCGGCC-CGC-UUGCaCGUa -5'
miRNA: 3'- aCUGGCUaa--CGGCC-CGCUUgCACGUa -5'
miRNA: 3'- aCUGGCUaACGGcCCGCUUGcaCGUa -5'
miRNA: 3'- -ACUGGCUAACGGCCCGCUUGCACGUA- -5'
Results 1 - 4 of 4 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 12175 | 5' | -56.3 | NC_003309.1 | + | 46663 | 0.66 | 0.604014 |
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Target: 5'- gUGACCGg--GCCGGcGCGuAAUGcGCAg -3' miRNA: 3'- -ACUGGCuaaCGGCC-CGC-UUGCaCGUa -5' |
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| 12175 | 5' | -56.3 | NC_003309.1 | + | 37615 | 0.67 | 0.538607 |
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Target: 5'- cGGCCGGcuacGUCGGuGUGAAgGUGCAa -3' miRNA: 3'- aCUGGCUaa--CGGCC-CGCUUgCACGUa -5' |
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| 12175 | 5' | -56.3 | NC_003309.1 | + | 44437 | 0.69 | 0.426349 |
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Target: 5'- cGGCCGAcUGCC-GGCGAGCacGCAa -3' miRNA: 3'- aCUGGCUaACGGcCCGCUUGcaCGUa -5' |
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| 12175 | 5' | -56.3 | NC_003309.1 | + | 44091 | 1.06 | 0.00107 |
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Target: 5'- gUGACCGAUUGCCGGGCGAACGUGCAUg -3' miRNA: 3'- -ACUGGCUAACGGCCCGCUUGCACGUA- -5' |
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Note:
When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.
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